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NC_054955.1__YP_010078135.1__KMC43_gp11__00011

Bact-Vir

NC_054955.1__YP_010078135.1__KMC43_gp11__00011

Identity

Accession:
NC_054955 ↗
Kingdom:
phage

Quality

89.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Rahariannevirus› Ralstonia_phage_Raharianne

TaxID: 2759715

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 25-135
PDB
Domain cluster: rep: OP131589.1__UYL85460.1__gp05c__00005__D9-129
CATH (48)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1sziA02 1.20.120.340 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Flagellar protein FliS 0.75 60.0 5.55e-01 83.8% 86.1%
3o6xA02 1.20.120.1560 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.72 52.0 4.70e-01 74.8% 83.1%
6t0bc02 1.20.120.80 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Cytochrome c oxidase, subunit III, four-helix bundle 0.71 56.0 4.66e-01 83.8% 66.0%
1nzeA00 1.20.120.290 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Oxygen-evolving enhancer protein 3 (PsbQ), four-helix up-down bundle 0.71 54.0 5.44e-01 80.2% 92.0%
4w8pA02 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.71 57.0 5.42e-01 85.6% 91.5%
1y4cA03 1.20.120.660 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › IL-4 antagonist (De novo design) like domain 0.71 56.0 5.61e-01 83.8% 91.2%
3kavA00 1.20.1270.360 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.71 51.0 5.38e-01 76.6% 82.4%
1yjgA00 1.20.120.240 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Lipoprotein, type 6 0.70 55.0 4.89e-01 83.8% 92.4%
3caxA01 1.20.120.520 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › nmb1532 protein domain like 0.70 60.0 4.89e-01 96.4% 74.7%
4p9tA01 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.69 55.0 5.35e-01 83.8% 94.2%
4od4A02 1.20.120.1780 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › UbiA prenyltransferase 0.69 49.0 4.85e-01 74.8% 90.8%
4iggB06 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.68 58.0 4.66e-01 92.8% 67.9%
3ls1A00 1.20.120.290 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Oxygen-evolving enhancer protein 3 (PsbQ), four-helix up-down bundle 0.67 53.0 4.97e-01 82.9% 78.9%
2f2gA00 1.20.910.10 Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like 0.67 47.0 3.80e-01 73.0% 81.4%
4nqfA00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.65 53.0 4.89e-01 88.3% 86.2%
3n98A02 1.20.1430.10 Mainly Alpha › Up-down Bundle › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase, middle domain 0.64 49.0 4.63e-01 80.2% 86.6%
3thxB03 1.10.1420.10 Mainly Alpha › Orthogonal Bundle › MutS, DNA mismatch repair protein; Chain A, domain 3 › 0.64 51.0 4.35e-01 85.6% 79.3%
1xwjA01 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.64 50.0 4.81e-01 84.7% 89.2%
3d2eA06 1.20.1270.10 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.64 44.0 4.42e-01 71.2% 71.7%
1a5tA03 1.20.272.10 Mainly Alpha › Up-down Bundle › Zinc Finger, Delta Prime; domain 3 › 0.63 45.0 4.52e-01 74.8% 88.8%
1yfmA02 1.20.200.10 Mainly Alpha › Up-down Bundle › Fumarase C; Chain A, domain 2 › Fumarase/aspartase (Central domain) 0.63 50.0 3.80e-01 85.6% 71.4%
3geeA02 1.20.120.430 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › tRNA modification GTPase MnmE domain 2 0.63 46.0 4.07e-01 77.5% 70.8%
3qhbA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.62 47.0 4.03e-01 80.2% 92.2%
2e9fB01 1.10.275.10 Mainly Alpha › Orthogonal Bundle › Fumarase C; Chain B, domain 1 › Fumarase/aspartase (N-terminal domain) 0.62 42.0 4.53e-01 70.3% 89.6%
6ig5A01 1.10.275.10 Mainly Alpha › Orthogonal Bundle › Fumarase C; Chain B, domain 1 › Fumarase/aspartase (N-terminal domain) 0.62 50.0 4.69e-01 88.3% 91.3%
1tfkB00 1.20.120.650 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Colicin D 0.61 42.0 4.62e-01 70.3% 97.7%
2b5dX02 1.20.1430.10 Mainly Alpha › Up-down Bundle › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase, middle domain 0.61 48.0 4.85e-01 84.7% 99.1%
1aepA00 1.20.120.20 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Apolipoprotein 0.61 48.0 4.38e-01 85.6% 85.0%
4dvyP03 1.20.120.1270 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › CagA exotoxin domain III 0.61 43.0 3.83e-01 83.8% 50.0%
2yksA02 1.20.58.390 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Neurotransmitter-gated ion-channel transmembrane domain 0.61 42.0 4.13e-01 70.3% 81.2%
4jvsA01 1.20.120.1700 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.60 47.0 4.52e-01 83.8% 91.3%
1tj7A01 1.10.275.10 Mainly Alpha › Orthogonal Bundle › Fumarase C; Chain B, domain 1 › Fumarase/aspartase (N-terminal domain) 0.59 43.0 4.41e-01 74.8% 100.0%
3a06B03 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.58 30.0 3.39e-01 73.0% 62.5%
1k90B03 1.20.140.60 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › 0.58 43.0 4.27e-01 93.7% 74.8%
3apzA00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.57 42.0 3.09e-01 86.5% 28.4%
1qoyA00 1.20.1170.10 Mainly Alpha › Up-down Bundle › Hemolysin E; Chain: A; › 0.57 44.0 3.24e-01 82.0% 90.1%
2oc5A01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.57 51.0 4.10e-01 100.0% 84.2%
1n1bB02 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.55 41.0 3.05e-01 77.5% 55.5%
8anqA00 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.55 45.0 3.60e-01 88.3% 82.1%
2wdqC00 1.20.1300.10 Mainly Alpha › Up-down Bundle › 3 helical TM bundles of succinate and fumarate reductases › Fumarate reductase/succinate dehydrogenase, transmembrane subunit 0.55 39.0 3.82e-01 73.9% 86.8%
3e7qA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.54 38.0 3.14e-01 73.0% 58.7%
1z72A00 1.20.910.10 Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like 0.54 45.0 3.71e-01 92.8% 88.0%
7zxkC01 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.54 42.0 3.81e-01 82.0% 64.0%
1wwmA00 1.20.910.10 Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like 0.54 41.0 3.57e-01 82.0% 86.7%
1l0oC00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.54 28.0 3.76e-01 87.4% 98.2%
1n83A00 1.10.565.10 Mainly Alpha › Orthogonal Bundle › Retinoid X Receptor › Retinoid X Receptor 0.53 41.0 3.23e-01 83.8% 70.9%
3fm9A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.51 31.0 3.69e-01 85.6% 88.5%
3s6jE02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.51 31.0 3.90e-01 84.7% 100.0%
ECOD (46)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3766437 601.16.1.20 ↗ alpha bundles › Four-helical up-and-down bundle › FAT domain of focal adhesion kinase › FAT domain of focal adhesion kinase › Insc_C 0.75 56.0 5.55e-01 77.5% 93.9%
4941192 3567.1.1.0 ↗ a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer 0.74 52.0 5.03e-01 73.0% 92.8%
3891652 601.11.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › Mannose-6-phosphate receptor binding protein 1 (Tip47), C-terminal domain › Mannose-6-phosphate receptor binding protein 1 (Tip47), C-terminal domain › Perilipin 0.73 62.0 4.82e-01 91.0% 74.5%
5029372 601.7.1.2 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › HEPN 0.72 57.0 5.50e-01 84.7% 95.3%
3768053 3684.1.1.0 ↗ alpha complex topology › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like 0.72 57.0 5.05e-01 83.8% 89.7%
3790952 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.71 56.0 5.07e-01 82.9% 85.5%
3338586 632.1.1.12 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain › GAUT_1 0.71 49.0 5.34e-01 73.0% 87.8%
3970945 601.4.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains 0.68 54.0 5.42e-01 84.7% 100.0%
3435307 3684.1.1.0 ↗ alpha complex topology › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like 0.68 52.0 4.50e-01 80.2% 64.7%
5022737 1030.1.1.1 ↗ alpha duplicates or obligate multimers › Crispr-associated protein Csm2 › Crispr-associated protein Csm2 › Crispr-associated protein Csm2 › Csm2_III-A 0.67 47.0 4.10e-01 72.1% 53.3%
3919347 601.1.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin 0.67 54.0 4.67e-01 88.3% 71.7%
5010954 601.4.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains 0.67 53.0 5.33e-01 83.8% 98.2%
4102845 601.4.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains 0.67 51.0 5.00e-01 81.1% 87.5%
3389416 140.1.1.0 ↗ alpha bundles › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases 0.66 49.0 5.17e-01 78.4% 92.0%
3660396 150.1.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin 0.66 49.0 4.95e-01 77.5% 96.4%
3282728 1174.1.1.2 ↗ alpha complex topology › Potassium channel TMEM175 › Potassium channel TMEM175 › Potassium channel TMEM175 › LtrA 0.66 45.0 3.87e-01 70.3% 78.9%
3438470 633.23.1.0 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin 0.66 53.0 4.17e-01 85.6% 88.9%
3686449 633.6.1.12 ↗ alpha bundles › Bromodomain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA dehydrogenase C-terminal domain-like › ACOX+ACOX_C_alpha1 0.66 50.0 3.62e-01 81.1% 92.3%
4929723 601.7.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain 0.65 56.0 5.02e-01 94.6% 87.1%
4964055 5069.1.1.6 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes › COX15-CtaA 0.65 51.0 4.79e-01 84.7% 92.1%
3554055 3567.1.1.12 ↗ a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer › CD47 0.65 50.0 4.31e-01 81.1% 78.2%
4877224 5001.1.1.6 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Bac_rhodopsin 0.64 46.0 3.57e-01 73.9% 51.3%
3409916 188.1.1.1 ↗ alpha arrays › Nuclear receptor ligand-binding domain › Nuclear receptor ligand-binding domain › Nuclear receptor ligand-binding domain › Hormone_recep 0.63 50.0 3.96e-01 84.7% 80.3%
4020144 5038.2.1.0 ↗ alpha superhelices › Cytochrome c oxidase subunit I-like › MAPEG domain-like › MAPEG domain-like 0.63 43.0 3.94e-01 70.3% 54.4%
5065212 601.7.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain 0.63 54.0 5.13e-01 93.7% 93.8%
3903061 601.1.3.2 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › A middle domain of Talin 1 › GCIP_N 0.62 46.0 4.06e-01 77.5% 73.1%
3580708 5039.1.1.6 ↗ alpha bundles › Cytochrome c oxidase subunit III-like › Cytochrome c oxidase subunit III-like › Cytochrome c oxidase subunit III-like › Tmemb_161AB 0.61 45.0 3.47e-01 77.5% 63.2%
5002084 5001.1.1.0 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like 0.60 44.0 3.49e-01 78.4% 77.6%
54476 601.5.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Colicin D immunity protein › Colicin D immunity protein 0.60 41.0 4.59e-01 71.2% 98.8%
3727 601.5.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › Colicin D immunity protein › Colicin D immunity protein › Colicin_immun 0.60 42.0 4.65e-01 73.9% 100.0%
3733292 5069.1.1.0 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes 0.59 52.0 4.27e-01 97.3% 97.1%
3579677 5059.1.1.1 ↗ alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter › EamA 0.58 44.0 3.11e-01 78.4% 97.2%
5011612 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.58 45.0 4.30e-01 82.9% 86.9%
4534540 3718.1.1.1 ↗ alpha bundles › Flagellar protein fliT › Flagellar protein fliT › Flagellar protein fliT › FliT 0.58 40.0 4.11e-01 88.3% 74.3%
3734644 5001.1.1.85 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Fung_rhodopsin 0.57 47.0 3.46e-01 88.3% 83.7%
3594855 639.2.1.0 ↗ alpha arrays › HHA-like › Regulator of acid resistance influenced by indole (AriR) › Regulator of acid resistance influenced by indole (AriR) 0.57 42.0 4.31e-01 88.3% 79.1%
3737807 5059.1.1.4 ↗ alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter › Nuc_sug_transp 0.56 42.0 3.05e-01 79.3% 96.3%
4275057 1075.5.1.12 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Multidrug and toxic compound extrusion (MATE) transporter › Multidrug and toxic compound extrusion (MATE) transporter › MurJ, Polysacc_synt_3 0.55 48.0 3.61e-01 93.7% 83.0%
3023248 5001.1.1.6 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Bac_rhodopsin 0.55 45.0 3.58e-01 88.3% 81.6%
3785233 3745.1.1.1 ↗ alpha bundles › Sodium/Calcium exchanger › Sodium/Calcium exchanger › Sodium/Calcium exchanger › Na_Ca_ex 0.53 47.0 3.35e-01 99.1% 86.4%
3515944 109.4.1.443 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › MOR2-PAG1_C 0.53 47.0 3.36e-01 97.3% 61.8%
3943967 180.1.1.1 ↗ alpha bundles › Acid phosphatase/Vanadium-dependent haloperoxidase › Acid phosphatase/Vanadium-dependent haloperoxidase › Acid phosphatase/Vanadium-dependent haloperoxidase › PAP2 0.52 42.0 3.60e-01 87.4% 88.1%
3666891 3718.1.1.13 ↗ alpha bundles › Flagellar protein fliT › Flagellar protein fliT › Flagellar protein fliT › KNOX1, KNOX2 0.52 36.0 3.71e-01 95.5% 72.2%
4991205 3646.1.1.0 ↗ alpha complex topology › T-component of energy-coupling factor (ECF) transporters › T-component of energy-coupling factor (ECF) transporters › T-component of energy-coupling factor (ECF) transporters 0.51 39.0 3.32e-01 83.8% 47.2%
5073417 3457.1.1.1 ↗ alpha bundles › GxGD membrane protease › GxGD membrane protease › GxGD membrane protease › Peptidase_A24 0.51 38.0 3.02e-01 80.2% 38.4%
4983115 3646.1.1.1 ↗ alpha complex topology › T-component of energy-coupling factor (ECF) transporters › T-component of energy-coupling factor (ECF) transporters › T-component of energy-coupling factor (ECF) transporters › CbiQ 0.51 42.0 3.35e-01 90.1% 85.2%